DynDom - Protein Domain Motions

Spike Glycoprotein,fibritin

(All numbering and residues are taken from first PDB file)

Run Details Domains Sequence Morph Domain Pairs Contact Graph

DynDom run details

Property	Value
Name	Spike Glycoprotein,fibritin
Conformer 1 (PDB)	6crz (A)
Conformer 2 (PDB)	6vxx (A)
Window Length	15
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	826	2.71	38 - 327 346 - 378 423 - 426 513 - 1113
2	113	2.38	328 - 345 379 - 422 427 - 512

Sequence

`________________________________________________________________________________________________________________________` `6crz(A) : RCTTFDDVQAPNYTQHTSSMRGVYYPDEIFRSDTLYLTQDLFLPFYSNVTGFHTINHTFGNPVIPFKDGIYFAATEKSNVVRGWVFGSTMNNKSQSVIIINNSTNVVIRACNFELCDNPF` `:` `6vxx(A) : ***********AYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFHAIHd---NPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPF` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6crz(A) : FAVSKPMGTQTHTMIFDNAFNCTFEYISDAFSLDVSEKSGNFKHLREFVFKNKDGFLYVYKGYQPIDVVRDLPSGFNTLKPIFKLPLGINITNFRAILTAFSPiWGTSAAAYFVGYLKPT` `:` `6vxx(A) : LGV-----------------nCTFEYVS-------------fKNLREFVFKNIDGYFKIYSKHTPINLVRDLPQGFSALEPLVDLPIGINITRFQTLLALH--------aAYYVGYLQPR` `________________________________________________________________________________________________________________________` `________________________________________________________________327_______________345___________________________________` `6crz(A) : TFMLKYDENGTITDAVDCSQNPLAELKCSVKSFEIDKGIYQTSNFRVVPSGDVVRFPNITNLCPFGEVFNATKFPSVYAWERKKISNCVADYSVLYNSTFFSTFKCYa---TKLNDLCFS` `:` `6vxx(A) : TFLLKYNENGTITDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFT` `________________________________________________________________340_______________358___________________________________` `_______________________________________422____________________________________________________________________________50` `6crz(A) : NVYADSFVVKGDDVRQIAPGQTGVIADYNYKLPDDFMGCVLAWNTRNIDATSTGNYNYKYRYLRHGKLRPFERDISNVPFSPDGKPCTPPALNCYWPLNDYGFYTTTGIGYQPYRVVVLS` `:` `6vxx(A) : NVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLD--SKgNYNYLYR-------kPFERDI-------------------yFPLQSYGFQPTN-vGYQPYRVVVLS` `_______________________________________435____________________________________________________________________________51` `1_______________________________________________________________________________________________________________________` `6crz(A) : FE------tVCGPKLSTDLIKNQCVNFNFNGLTGTGVLTPSSKRFQPFQQFGRDVSDFTDSVRDPKTSEILDISPCAFGGVSVITPGTNASSEVAVLYQDVNCTDVSTAIHADQLTPAWR` `:` `6vxx(A) : FELLHAPATVCGPKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFLPFQQFGRDIADTTDAVRDPQTLEILDITPCSFGGVSVITPGTNTSNQVAVLYQDVNCTEV--------------` `5_______________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6crz(A) :` `IYSTGNNVFQTQAGCLIGAEHVDTSYECDIPIGAGICASYHT-kSIVAYTMSLGADSSIAYSNNTIAIPTNFSISITTEVMPVSMAKTSVDCNMYICGDSTECANLLLQYGSFCTQLNRA` `:` `6vxx(A) :` `------nVFQTRAGCLIGAEHVNNSYECDIPIGAGICASYQTsQSIIAYTMSLGAENSVAYSNNSIAIPTNFTISVTTEILPVSMTKTSVDCTMYICGDSTECSNLLLQYGSFCTQLNRA` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6crz(A) : LSGIAAEQDRNTREVFAQVKQMYKTPTLKYFGGFNFSQILPDPLKPTKRSFIEDLLFNKVTqYGECLGlICAQKFNGLTVLPPLLTDDMIAAYTAALVSGTATAGWTFGAGAALQIPFAM` `:` `6vxx(A) : LTGIAVEQDKNTQEVFAQVKQIYKTPPIKDFGGFNFSQILPDPSKPSKRSFIEDLLFNKVT------------kFNGLTVLPPLLTDEMIAQYTSALLAGTITSGWTFGAGAALQIPFAM` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6crz(A) : QMAYRFNGIGVTQNVLYENQKQIANQFNKAISQIQESLTTTSTALGKLQDVVNQNAQALNTLVKQLSSNFGAISSVLNDILSRLDPPEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRA` `:` `6vxx(A) : QMAYRFNGIGVTQNVLYENQKLIANQFNSAIGKIQDSLSSTASALGKLQDVVNQNAQALNTLVKQLSSNFGAISSVLNDILSRLDPPEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRA` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6crz(A) : SANLAATKMSECVLGQSKRVDFCGKGYHLMSFPQAAPHGVVFLHVTYVPSQERNFTTAPAICHEGKAYFPREGVFVFNGTSWFITQRNFFSPQIITTDNTFVSGNCDVVIGIINNTVY` `:` `6vxx(A) : SANLAATKMSECVLGQSKRVDFCGKGYHLMSFPQSAPHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFYEPQIITTDNTFVSGNCDVVIGIVNNTVYDP` `________________________________________________________________________________________________________________________` `_______` `6crz(A) : *******` `:` `6vxx(A) : LQPELDS` `_______`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	15.5
Translation (A)	-2.3
Closure (%)	6.0
Bending Residues ( green )	327 - 329 345 - 380 422 - 434 501 - 514
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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